From d9396adbdf2e47f00a7cf327d96750658f38a0ec Mon Sep 17 00:00:00 2001
From: Harshil Patel <drpatelh@users.noreply.github.com>
Date: Mon, 15 Mar 2021 12:21:21 +0000
Subject: [PATCH] Update software version command (#269)

---
 software/ivar/consensus/main.nf | 2 +-
 software/ivar/trim/main.nf      | 2 +-
 software/ivar/variants/main.nf  | 2 +-
 3 files changed, 3 insertions(+), 3 deletions(-)

diff --git a/software/ivar/consensus/main.nf b/software/ivar/consensus/main.nf
index 63cadf43..05fa13d5 100644
--- a/software/ivar/consensus/main.nf
+++ b/software/ivar/consensus/main.nf
@@ -42,6 +42,6 @@ process IVAR_CONSENSUS {
             $options.args \\
             -p $prefix
 
-    ivar version | head -n1 2>&1 | sed 's/^.*iVar version //g' > ${software}.version.txt
+    echo \$(ivar version 2>&1) | sed 's/^.*iVar version //; s/ .*\$//' > ${software}.version.txt
     """
 }
diff --git a/software/ivar/trim/main.nf b/software/ivar/trim/main.nf
index 4c1c5fbd..03dbdd9a 100644
--- a/software/ivar/trim/main.nf
+++ b/software/ivar/trim/main.nf
@@ -38,6 +38,6 @@ process IVAR_TRIM {
         -p $prefix \\
         > ${prefix}.ivar.log
 
-    ivar version | head -n1 2>&1 | sed 's/^.*iVar version //g' > ${software}.version.txt
+    echo \$(ivar version 2>&1) | sed 's/^.*iVar version //; s/ .*\$//' > ${software}.version.txt
     """
 }
diff --git a/software/ivar/variants/main.nf b/software/ivar/variants/main.nf
index 85ad9463..343536cd 100644
--- a/software/ivar/variants/main.nf
+++ b/software/ivar/variants/main.nf
@@ -45,6 +45,6 @@ process IVAR_VARIANTS {
             -r $fasta \\
             -p $prefix
 
-    ivar version | head -n1 2>&1 | sed 's/^.*iVar version //g' > ${software}.version.txt
+    echo \$(ivar version 2>&1) | sed 's/^.*iVar version //; s/ .*\$//' > ${software}.version.txt
     """
 }